scholarly journals The effect of genetic polymorphisms on treatment duration following premolar extraction

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Jiyon Yu ◽  
Yoon Jeong Choi ◽  
Sung-Hwan Choi ◽  
Han-Sung Jung ◽  
Ji Hyun Lee ◽  
...  
Keyword(s):  
Genetic Polymorphisms ◽  
Treatment Duration ◽  
Orthodontic Treatment ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Factors Affecting ◽  
Targeted Next Generation Sequencing ◽  
Premolar Extraction ◽  
Orthodontic Patients ◽  
Generation Sequencing

AbstractTo elucidate genetic factors affecting orthodontic treatment duration, we employed targeted next-generation sequencing on DNA from the saliva of 117 patients undergoing orthodontic treatment after premolar extraction. The clinical characteristics of patients are summarized, and the association of clinical variables with treatment duration was assessed. Patients whose treatment duration deviated from the average were classified into an extreme long group or an extreme short group. We identified nine single nucleotide polymorphisms (SNPs) of six genes that significantly differed in the two groups via targeted sequencing. The frequency of the CC genotypes of WNT3A, SPP1 (rs4754, rs9138), and TNFSF11, TT genotype of SPP1 (rs1126616), and GG genotype of SFRP2 was significantly higher in the extreme long group than in the short group. In the extreme short group, the TC genotype of SPP1, AA genotype of P2RX7, CT genotype of TNFSF11, and AG genotype of TNFRSF11A tended to exhibit higher frequency than in the long group. Taken together, we identified genetic polymorphisms related to treatment duration in Korean orthodontic patients undergoing premolar extraction. Our findings could lead to further studies predicting the prolongation of the orthodontic treatment duration, and will be of great aid to patients as well as orthodontists.

scholarly journals The Effect of Genetic Polymorphisms on Treatment Duration Following Premolar Extraction

2021 ◽  
Author(s):  
Jiyon Yu ◽  
Yoon-Jeong Choi ◽  
Sung-Hwan Choi ◽  
Han-Sung Jung ◽  
Ji Hyun Lee ◽  
...  
Keyword(s):  
Genetic Polymorphisms ◽  
Treatment Duration ◽  
Orthodontic Treatment ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Factors Affecting ◽  
Targeted Next Generation Sequencing ◽  
Premolar Extraction ◽  
Orthodontic Patients ◽  
Generation Sequencing

Abstract To elucidate genetic factors affecting orthodontic treatment duration, we employed targeted next-generation sequencing on DNA from the saliva of 117 patients undergoing orthodontic treatment after premolar extraction. The clinical characteristics of patients were summarized, and the association of clinical variables with treatment duration was assessed. Patients whose treatment duration deviated from the average were classified into an extreme long group or an extreme short group. We identified single nucleotide polymorphisms (SNPs) significantly enriched in the two groups via targeted sequencing. Nine SNPs (six genes) were significantly enriched in both groups. In the extreme long group, the frequency of the CC genotypes of WNT3A, SPP1 (rs4754, rs9138), and TNFSF11, the TT genotype of SPP1 (rs1126616), as well as the GG genotype of SFRP2 was significantly higher than in the short group. In the extreme short group, the TC genotype of SPP1, the AA genotype of P2RX7, the CT genotype of TNFSF11, and the AG genotype of TNFRSF11A tended to exhibit higher frequency than in the long group. Taken together, we identified genetic polymorphisms related to treatment duration in Korean orthodontic patients undergoing premolar extraction. Accurate prediction of the treatment period through further research will be of great aid to patients as well as orthodontists.

scholarly journals Repli-seq: genome-wide analysis of replication timing by next-generation sequencing

2017 ◽  
Author(s):  
Claire Marchal ◽  
Takayo Sasaki ◽  
Daniel Vera ◽  
Korey Wilson ◽  
Jiao Sima ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Replication Timing ◽  
Nucleotide Polymorphisms ◽  
Robust Methods ◽  
Next Generation ◽  
Single Nucleotide ◽  
Cellular Processes ◽  
Genome Wide ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

ABSTRACTCycling cells duplicate their DNA content during S phase, following a defined program called replication timing (RT). Early and late replicating regions differ in terms of mutation rates, transcriptional activity, chromatin marks and sub-nuclear position. Moreover, RT is regulated during development and is altered in disease. Exploring mechanisms linking RT to other cellular processes in normal and diseased cells will be facilitated by rapid and robust methods with which to measure RT genome wide. Here, we describe a rapid, robust and relatively inexpensive protocol to analyze genome-wide RT by next-generation sequencing (NGS). This protocol yields highly reproducible results across laboratories and platforms. We also provide computational pipelines for analysis, parsing phased genomes using single nucleotide polymorphisms (SNP) for analyzing RT allelic asynchrony, and for direct comparison to Repli-chip data obtained by analyzing nascent DNA by microarrays.

scholarly journals Precision Medication of Tacrolimus Based on the Genotype by Using Second-generation Sequencing

2019 ◽  
Vol 4 (1) ◽  
Author(s):  
Yumeng Li
Keyword(s):  
Organ Transplantation ◽  
Second Generation ◽  
Low Cost ◽  
Single Nucleotide ◽  
Factors Affecting ◽  
Key Enzyme ◽  
Second Generation Sequencing ◽  
Degree Level ◽  
Generation Sequencing ◽  
Related Mortality

Organ transplantation has become a powerful strategy for the treatment of malignant diseases. Nevertheless, graft rejection is one of the main factors affecting graft survival after organ transplantation. Under this circumstance, the transplant-related mortality still keeps up. This invention includes the precise medication guidance of Tacrolimus (FK506) inapplicable population, against the side-effects of this drug. This invention, based on second-generation sequencing, has the advantages of relatively low cost and high sequencing throughput. During the design process, we collect the data of single nucleotide polymorphism (SNP) concerning the adverse drug reactions of Tacrolimus. Then we filter and summarize fifteen SNPs basing on importance degree (level >key enzyme>race). Thenceforth, after the process of analyzing the raw extract by operating BWA, Picard-tools, GATK, and Perl, we annotate SNPs by Annovar. Through this innovation, people can obtain further feedback on drugs that targets different genes in order to achieve the purpose of precision medication and minimizing the risks of misusing Tacrolimus.

scholarly journals Study of rs12532, rs8670 Polymorphism of Msh Homeobox 1 (MSX1), rs61754301, rs4904155 Polymorphism of Paired Box Gene 9 (PAX9), and rs2240308 Polymorphism of Axis Inhibitor Protein 2 (AXIN2) Genes in Nonsyndromic Hypodontia

2019 ◽  
Vol 2019 ◽  
pp. 1-7 ◽  
Author(s):  
Krisztina Mártha ◽  
Bernadette Kerekes Máthé ◽  
Valeriu George Moldovan ◽  
Claudia Bănescu
Keyword(s):  
Environmental Factors ◽  
Genetic Background ◽  
Orthodontic Treatment ◽  
Statistical Significance ◽  
Nucleotide Polymorphisms ◽  
Inhibitor Protein ◽  
Single Nucleotide ◽  
Variant Genotype ◽  
Genetic And Environmental Factors ◽  
Age And Sex

The etiology of hypodontia is complex, in which both genetic and environmental factors can be related. The main objective of our study was to contribute to elucidating the genetic background of nonsyndromic hypodontia (NSH). In this order, we selected 97 NSH subjects (70 females and 27 males) from patients referred to orthodontic treatment, and we matched to each NSH subject a control by age and sex. DNA was obtained from epithelial cells from the oral mucosa. Genotyping of the PAX9 (rs4904155 and rs61754301), MSX1 (rs8670 and rs12532), and AXIN2 (rs2240308) SNPs was performed by using TaqMan SNP Genotyping Assays on a real-time PCR system. Single-nucleotide polymorphisms (SNPs) were studied for the whole NSH group and for frontal and lateral agenesis NSH subjects separately. Our results showed that the variant genotype (p=0.0008, OR = 2.9, 95% CI = 1.58–5.3) and variant T allele (p=0.0002, OR = 2.65, 95% CI = 1.6–4.39) of the MSX1 rs8670 SNP increased the risk of hypodontia in the studied population when the whole NSH group was compared with controls. The variant genotype of the MSX1 rs8670 SNP was the most frequent in frontal agenesis; meanwhile in the lateral agenesis NSH group, the AXIN2 rs2240308 SNP showed a higher frequency of the variant genotype, with a trend towards statistical significance. In conclusion, the results of the present study showed that the variant genotype and variant T allele of the MSX1 rs8670 SNP increased the risk of hypodontia in the studied population. The presence of the variant A allele of AXIN2 rs2240308 is associated with frontal agenesis but not with lateral agenesis.

scholarly journals Factors affecting orthodontic treatment time and how to predict it

2021 ◽  
Author(s):  
Rania Adel Mitwally ◽  
Laila Marzooq Alesawi ◽  
Adhwaa Yahya Humedi ◽  
Saleh Saeed Al Baaltahin ◽  
Yara Ahmed Saeedi ◽  
...  
Keyword(s):  
Treatment Duration ◽  
Orthodontic Treatment ◽  
Treatment Time ◽  
Treatment Plan ◽  
Prolonged Treatment ◽  
Large Set ◽  
Factors Affecting ◽  
Underlying Condition ◽  
Level Of Satisfaction ◽  
Speed Up

Orthodontic treatment time has been associated with certain parameters that can affect the different aspects of treatment regards to the patient and orthodontist. Therefore, a large set of research has focused on studying these factors. Many factors have been proposed in the literature as significant predictors for prolonged orthodontic treatment duration. In general, these factors are related to the patient, orthodontist, procedure, and severity of the underlying condition. Acquiring more knowledge about these factors can help orthodontists speed up the treatment plan, which might enhance the treatment outcomes and enhance the levels of satisfaction. In the current study, we have provided updated evidence regarding the different factors affecting orthodontic treatment time according to evidence from studies in the literature. Many factors were reported, including factors related to the procedure and the underlying condition, and factors related to the patient and orthodontist. Increasing knowledge and experience of the orthodontist might increase the level of satisfaction as it has been reported to significantly reduce the treatment duration. However, this should be accompanied by adequate patient compliance, which was also reported to be a significant predictor for prolonged treatment duration. Investigating the application of recent modalities that can speed up the treatment plan is not adequately validated, indicating the need for future validating studies.

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